←Back to structures

NC_070764.1__YP_010649173.1__PP304_gp194__00129

Bact-Vir

NC_070764.1__YP_010649173.1__PP304_gp194__00129

Identity

Accession:
NC_070764 ↗
Kingdom:
phage

Quality

90.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Godonkavirus› Gordonia_phage_Phendrix

TaxID: 2593335

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 4-68
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.70 42.0 4.43e-01 75.4% 68.4%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 42.0 3.06e-01 70.8% 43.7%
4b3lA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.62 46.0 2.73e-01 78.5% 30.8%
1fxkC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 45.0 3.64e-01 80.0% 81.2%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 42.0 3.53e-01 70.8% 48.1%
2zdiC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 47.0 3.64e-01 84.6% 77.0%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 46.0 4.05e-01 80.0% 71.3%
6ruiB04 3.90.1110.10 Alpha Beta › Alpha-Beta Complex › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3 › RNA polymerase Rpb2, domain 2 0.60 43.0 3.02e-01 73.8% 98.4%
4xhpA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 45.0 3.34e-01 81.5% 50.3%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.59 41.0 2.93e-01 75.4% 26.0%
2w9jA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.58 38.0 3.70e-01 75.4% 60.6%
1kcgC00 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.57 42.0 3.17e-01 80.0% 97.6%
1r8gA00 3.30.590.20 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › 0.57 45.0 2.84e-01 86.2% 45.2%
5umbA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 40.0 2.94e-01 75.4% 71.8%
3e8tA00 3.15.10.30 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › TULIP domain 0.56 44.0 3.11e-01 87.7% 84.3%
8fwpB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 39.0 2.75e-01 75.4% 57.5%
1h0hA02 3.40.50.740 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 40.0 2.72e-01 96.9% 20.5%
1kqfA02 3.40.50.740 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 40.0 2.68e-01 98.5% 20.5%
4zohA05 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.55 49.0 3.77e-01 98.5% 60.3%
4qn0B00 3.40.570.10 Alpha Beta › 3-Layer(aba) Sandwich › Extracellular Endonuclease; Chain A › Extracellular Endonuclease, subunit A 0.54 41.0 2.77e-01 81.5% 26.8%
5mmiG01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.54 40.0 3.69e-01 80.0% 100.0%
4bmjA00 6.20.250.40 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.52 38.0 3.88e-01 89.2% 83.9%
1rxqD00 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.52 42.0 3.10e-01 87.7% 42.6%
3vhtB02 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 28.0 3.24e-01 72.3% 91.2%
3hdeC00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.50 42.0 3.23e-01 96.9% 55.5%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3298201 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.71 37.0 3.68e-01 76.9% 48.6%
3594109 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.67 49.0 3.74e-01 78.5% 74.0%
3710532 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.66 49.0 4.17e-01 78.5% 87.6%
4303742 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.66 49.0 4.01e-01 80.0% 87.5%
4951472 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.65 48.0 3.66e-01 78.5% 87.9%
3398317 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.65 49.0 3.61e-01 80.0% 81.9%
5022380 3755.3.1.632 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Prefoldin 0.65 48.0 3.77e-01 80.0% 92.9%
4118829 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.64 48.0 3.73e-01 80.0% 86.4%
3896368 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.64 48.0 3.66e-01 80.0% 61.5%
5079975 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.64 48.0 3.69e-01 80.0% 82.1%
3614646 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.64 48.0 3.61e-01 80.0% 89.7%
4532543 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.64 47.0 3.66e-01 78.5% 80.0%
4029803 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.63 49.0 3.95e-01 84.6% 63.1%
4945806 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.63 50.0 4.04e-01 84.6% 87.5%
4160852 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.62 49.0 3.82e-01 84.6% 96.4%
5049184 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.61 51.0 3.58e-01 98.5% 50.8%
3603411 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.61 45.0 3.58e-01 80.0% 77.0%
5056505 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.61 47.0 3.84e-01 81.5% 77.4%
4616960 321.1.1.7 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › GCS2 0.60 49.0 3.00e-01 86.2% 47.6%
3291238 321.1.1.7 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › GCS2 0.60 48.0 2.97e-01 86.2% 48.2%
3549608 904.1.1.1 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box 0.60 41.0 2.83e-01 70.8% 28.4%
3214541 5001.1.1.106 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Str 0.60 50.0 3.25e-01 95.4% 70.7%
3599017 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.60 43.0 3.16e-01 75.4% 31.2%
5049962 1144.1.1.1 ↗ beta sandwiches › Apc (acetophenone carboxylase) beta subunit C-terminal domain › Apc (acetophenone carboxylase) beta subunit C-terminal domain › Apc (acetophenone carboxylase) beta subunit C-terminal domain › Hydantoinase_B 0.59 51.0 3.24e-01 95.4% 27.1%
3415237 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 46.0 3.20e-01 87.7% 75.3%
3515407 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.58 45.0 3.32e-01 83.1% 35.7%
3575976 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.57 43.0 3.35e-01 81.5% 68.3%
4993906 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.57 43.0 3.36e-01 81.5% 67.9%
4410759 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.55 41.0 3.44e-01 95.4% 44.3%
4025655 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.55 40.0 3.57e-01 95.4% 51.6%
5029396 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.55 43.0 3.58e-01 84.6% 82.6%
4990636 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.54 43.0 3.44e-01 86.2% 73.1%
3405744 261.1.1.1 ↗ a+b complex topology › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › HECT 0.53 42.0 2.62e-01 92.3% 22.8%
3928048 261.1.1.1 ↗ a+b complex topology › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › HECT 0.52 44.0 2.69e-01 92.3% 20.7%
5083074 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.52 43.0 3.23e-01 87.7% 71.3%
3766119 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 46.0 2.83e-01 98.5% 23.3%
3749669 11.1.1.99 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.52 37.0 2.93e-01 75.4% 66.2%
3195026 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.51 35.0 2.22e-01 70.8% 46.9%
4203118 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.51 39.0 3.58e-01 86.2% 64.4%
3503277 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.50 29.0 2.99e-01 89.2% 53.8%
5036923 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.50 39.0 2.32e-01 81.5% 47.3%